Details
Structure visualisation
Entry information
| Complex | |
| AACDB_ID: | 1808 |
| PDBID: | 5VIC |
| Chains: | HL_E |
| Organism: | Homo sapiens, Dengue virus 1 Nauru/West Pac/1974 |
| Method: | XRD |
| Resolution (Å): | 3.00 |
| Reference: | 10.1016/j.cell.2017.04.024 |
| Antibody | |
| Antibody: | Z004 Fab |
| Antibody mutation: | No |
| INN (Clinical Trial): | |
| Antigen | |
| Antigen: | Dengue 1 Envelope DIII domain |
| Antigen mutation: | No |
| Durg Target: | |
Sequence information
Antibody
Heavy Chain: H
Mutation: NULL
| >5VIC_H|Chain A[auth H]|Fab heavy chain|Homo sapiens (9606) EVQLLESGGGLVQPGGSLRLTCATSGFTFRDYAMSWVRQAPGKGLEWVSSYSGIDDSTYYADSVKGRFTISRDNSKSTLSLHMNSLRAEDSALYFCAKDRGPRGVGELFDSWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTHHHHHH |
Light Chain: L
Mutation: NULL
| >5VIC_L|Chain B[auth L]|Fab light chain|Homo sapiens (9606) DIQMTQSPSTLSASVGDRVTITCRASQSISKWLAWYQQKPGKAPKLLIYTTSTLKSGVPSRFSGSGSGTEFTLTISSLQPDDFATYYCQHFYSVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC |
Antigen
Chain: E
Mutation: NULL
| >5VIC_E|Chain C[auth E]|Dengue 1 Envelope DIII domain|Dengue virus type 1 (strain Nauru/West Pac/1974) (11059) SYVMCTGSFKLEKEVAETQHGTVLVQVKYEGTDAPCKIPFSSQDEKGVTQNGRLITANPIVTDKEKPVNIEAEPPFGESYIVVGAGEKALKLSWFKKGS |
Interaction
1、Solvent accessible surface areas (SASA) were calculated (Naccess V2.1.1) for each residue in antibody and antigen, respectively. The residues with SASA loss in binding of more than 1Å2 were classified as interacting residues.
Interacting residues (ΔSASA based)
| H: ILE53 ASP54 SER56 THR57 TYR58 ASP95 ARG96 GLY97 PRO98 ARG99 L: ASP1 ILE2 GLN27 SER28 SER30 TRP32 TYR49 THR50 PHE91 TYR92 SER93 VAL94 PRO95 TRP96 E: VAL300 MET301 CYS302 THR303 GLY304 SER305 LYS307 GLU327 GLY328 THR329 ASP330 LYS334 PRO336 GLN340 LYS361 ALA382 GLY383 GLU384 LYS385 |
2、We defined interacting paratope-epitope residues by a distance cutoff of < 5Å . Two amino acids are considered as interacting residues if they have at least one atom within a distance of 5 Å from any atom.
Interacting residues (Atom distance based)
